Hi,
The method says to use C8, 75 X 4.6mm, 3um column.
However I've got C8, 75 X 4.6mm, 5um column from the same manufacturer. Can I go for it? What would be the possible difference that I can expect? What if I use longer column (e.g. C8, 150 X 4.6mm, 5um) would that compensate the difference of particle size?
As already mentioned, if you're in a regulated environment (e.g. pharma) you must use the 3µm column. Increase of particle diameter is not permitted according to the pharmacopoeias.
If you're free to change the method you may use the 5µm column at the cost of a decrease in plate count (i.e. wider peaks) and thus lower resolution and signal/noise ratio.
Using a 15cm 5µm column should give you theoratically roughly the same plate count (indeed even a bit more) than the 7.5 3µm at a bit lower back pressure. Be aware that retention times will be doubled though!
You said you have a column "of the same manufacturer"? Is it exactly the same stationary phase or just the same manufacturer (i.e. a different C8 column)? Different columns may give you different selectivities even if they're coming out of the same house...